RnoINT0146351 @ rn6
Intron Retention
Gene
ENSRNOG00000033110 | Svep1
Description
sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1 [Source:RGD Symbol;Acc:1588987]
Coordinates
chr5:75148069-75150059:-
Coord C1 exon
chr5:75149964-75150059
Coord A exon
chr5:75148165-75149963
Coord C2 exon
chr5:75148069-75148164
Length
1799 bp
Sequences
Splice sites
5' ss Seq
AGCGTGAGT
5' ss Score
8.2
3' ss Seq
GTTTTGTTCTGTTCTTTTAGCAA
3' ss Score
8.6
Exon sequences
Seq C1 exon
CTGTCTGCCGGTTCCCATGTCAGAATGGAGGGGTCTGCCAACGACCAAACGCTTGCTCCTGCCCAGACGGTTGGATGGGACGACTTTGTGAAGAGC
Seq A exon
GTGAGTCTGGCCTTGAGCATTGCTCTGAGCCCCTTTTATTTGCTGAGAAGCTGCAGGCTTAGGAGAGACAGTTCCTGGGAATTGCCTTTGCTGTCCCAAGGAACTGATCGCCTCAAACCCTTGCAGCGGACCAGCATGCACAGGTCTAACACATCAGCGGGCTGCAGAAAATTCATCTATAGTATCTATCTATCCCTGAAAGTGCAGTTGCCTCATCTAGTGTCTCACGAGCCTCTTGGCGCCCAGCAACTGAGTCTTCTTAGGAGGGGGCTTTGTGAGTGTCACAGTCCTCTCTCCCCTTATCTCAGGTCAGTGCTATCTGGCCACAGTCTTTGCTACAGTTGGAATAATTGTGCATATCACAGGGCACTGCGCCTTTCGGAAAACATGGGAGTCCACCATGACGCTTAGTCATGAGAAAGCCACTCCTAATTAAGAAAATAGGGAAAGTCACAAATCCTAATCTATATGATGTTTAGTAAATGAGCAGAATTTTCATGCTTAAACTACGCTTGGTTTATCAAAGGTGTATAAATAGCTCCCTTTTTTTTTTTTCATTTTATTATTTGTGCCCACGCATGTGCCAAGGCAGAGGACAACTTTCAGGAGTTAGTTCTCTCCTTTCACCAAGGGTCCTGGGGATCAAATTCAGTCATCAGGTCTGCTTAGCAAGTGCATTTACCTGTGGAGCTGTCTGGATGGCCCTCAGTGAATTCTTTTAAATGATTTTACAGACTAACGTGTGTTAACTCAATGTCTTGATGTATAAGGATACAGCTGCGTGTGTGGAGAGGCCCTGCTGAGTCCCTGATGTGACAGGAGTCAGGTTACACCTCTTGGGCTCTTTCCCTGCTGAACTCAAGGCCGACTCTAAAACTTATTCAATGTGACTTTTTCACCCTTTTTTTTAAAGGAAAATGAGTAATGGCTGTGATTAAGTCATCAAATCAAGGGTTTTCACAATGGCTAATATTTTTTAAAGCTGCCACAGTTTTTCCTTCTCCCTCCTCATTCCTTTTCATGTGGGGCTGGCTCCCAGGCTTCAGTGAGATAAATACTTAGGGTCCCACGATTCTGGGATACCCAAGTCACAGGCCAGGATAAGCCAGCTTAATTTGCTGAGCATTTACCTGCCCTTCTGCACAAAACAGAGGTGAGATCGCATACTTTAATTTGCATAGAAGCACCTTGGAGCGGCCTTAAGATGTAGAATCTGGTTCAGTCGACCAAAGATGGGACAACGTGAGAGTCCGCCCTTCTAACCAGTTCCTAGTTCATGCAAGGCAACGACTTCACATGCTCCACATCAGTCCTTGGCTCCTAGGAAAAAGAAGACATCGTCATATCACTACTAAAATATTGCAAGCAAGAGCCTATGGGACCTCCCAGCCAATTCCCATTCTCTCACGTGCAGTTCAAGAAGTCTGAGGCTGCACTTCACACAGTTCTCAAAAGGAATTTGAAATGGTGATCAATGGAGTTTGTGCTGCTTATGTTACAAAGACCGGAAGCAAAGCAGTCAGCAAACAGTGAGGACAGAGTGTCCTCCAGGAAAGAGTGCCTTTGGCCTCAGTGGTTACATCTGAGTCAGGATCTCCACCCTGATGTGCTTTCCCAGTGACACTCATTAATAAGCAGAGTGATACAGGGAGATCCTCTAGGGGGCCATTGTCTAGTTTCTCCTCCAGCAAAATGGATTGTGAACATTTGAGCCGATCTGAACATGAGTATCACGGTCAATGCTTTTCAACCCAGTTTTAATGTTTTTTTTTTTATTCTGTTTTGTTCTGTTCTTTTAG
Seq C2 exon
CAATATGCATACTCCCCTGTTTGAATGGTGGGCGCTGTGTGGCCCCTTATCGGTGTGACTGCCCCGCAGGCTGGACTGGATCCCGCTGTCATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033110:ENSRNOT00000047200:45
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PU(9.4=9.1)
A:
NA
C2:
PF0000822=EGF=PD(87.5=84.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTCTGCCGGTTCCCATG
R:
TGTATGACAGCGGGATCCAGT
Band lengths:
191-1990
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]